eF-site ID 5e79-d
PDB Code 5e79
Chain d

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Title Macromolecular diffractive imaging using imperfect crystals
Classification PHOTOSYNTHESIS
Compound Photosystem II protein D1 1
Source ORGANISM_SCIENTIFIC: Thermosynechococcus elongatus (strain BP-1);
Sequence d:  ERGWFDILDDWLKRDRFVFVGWSGILLFPCAYLALGGWLT
GTTFVTSWYTHGLASSYLEGCNFLTVAVSTPANSMGHSLL
LLWGPEAQGDFTRWCQLGGLWTFIALHGAFGLIGFMLRQF
EIARLVGVRPYNAIAFSAPIAVFVSVFLIYPLGQSSWFFA
PSFGVAAIFRFLLFFQGFHNWTLNPFHMMGVAGVLGGALL
CAIHGATVENTLFQDGEGASTFRAFNPTQAEETYSMVTAN
RFWSQIFGIAFSNKRWLHFFMLFVPVTGLWMSAIGVVGLA
LNLRSYDFISQEIRAAEDPEFETFYTKNLLLNEGIRAWMA
PQDQPHENFVFPEEVLPRGNAL
Description


Functional site

1) chain d
residue 214
type
sequence H
description binding site for residue FE2 a 602
source : AL4

2) chain d
residue 268
type
sequence H
description binding site for residue FE2 a 602
source : AL4

3) chain d
residue 317
type
sequence K
description binding site for residue CL a 603
source : AL5

4) chain d
residue 214
type
sequence H
description binding site for residue BCT a 605
source : AL7

5) chain d
residue 244
type
sequence Y
description binding site for residue BCT a 605
source : AL7

6) chain d
residue 268
type
sequence H
description binding site for residue BCT a 605
source : AL7

7) chain d
residue 205
type
sequence L
description binding site for residue CLA a 606
source : AL8

8) chain d
residue 157
type
sequence F
description binding site for residue CLA a 607
source : AL9

9) chain d
residue 175
type
sequence V
description binding site for residue CLA a 607
source : AL9

10) chain d
residue 178
type
sequence I
description binding site for residue CLA a 607
source : AL9

11) chain d
residue 182
type
sequence L
description binding site for residue CLA a 607
source : AL9

12) chain d
residue 205
type
sequence L
description binding site for residue PHO a 608
source : AM1

13) chain d
residue 209
type
sequence L
description binding site for residue PHO a 608
source : AM1

14) chain d
residue 213
type
sequence I
description binding site for residue PHO a 608
source : AM1

15) chain d
residue 253
type
sequence W
description binding site for residue PHO a 608
source : AM1

16) chain d
residue 257
type
sequence F
description binding site for residue PHO a 608
source : AM1

17) chain d
residue 30
type
sequence V
description binding site for residue PL9 a 611
source : AM4

18) chain d
residue 38
type
sequence F
description binding site for residue PL9 a 611
source : AM4

19) chain d
residue 39
type
sequence P
description binding site for residue PL9 a 611
source : AM4

20) chain d
residue 41
type
sequence A
description binding site for residue PL9 a 611
source : AM4

21) chain d
residue 232
type
sequence F
description binding site for residue SQD a 612
source : AM5

22) chain d
residue 233
type
sequence R
description binding site for residue SQD a 612
source : AM5

23) chain d
residue 198
type
sequence M
description binding site for residue CLA a 615
source : AM8

24) chain d
residue 201
type
sequence V
description binding site for residue CLA a 615
source : AM8

25) chain d
residue 205
type
sequence L
description binding site for residue CLA a 615
source : AM8

26) chain d
residue 206
type
sequence G
description binding site for residue CLA a 615
source : AM8

27) chain d
residue 219
type
sequence E
description binding site for residue LHG a 616
source : AM9

28) chain d
residue 220
type
sequence N
description binding site for residue LHG a 616
source : AM9

29) chain d
residue 229
type
sequence A
description binding site for residue LHG a 616
source : AM9

30) chain d
residue 230
type
sequence S
description binding site for residue LHG a 616
source : AM9

31) chain d
residue 231
type
sequence T
description binding site for residue LHG a 616
source : AM9

32) chain d
residue 232
type
sequence F
description binding site for residue LHG a 616
source : AM9

33) chain d
residue 120
type
sequence F
description binding site for residue CLA b 610
source : AO1

34) chain d
residue 123
type
sequence I
description binding site for residue CLA b 610
source : AO1

35) chain d
residue 126
type
sequence M
description binding site for residue CLA b 610
source : AO1

36) chain d
residue 127
type
sequence L
description binding site for residue CLA b 610
source : AO1

37) chain d
residue 150
type
sequence I
description binding site for residue CLA b 610
source : AO1

38) chain d
residue 41
type
sequence A
description binding site for residue PHO d 401
source : AR8

39) chain d
residue 48
type
sequence W
description binding site for residue PHO d 401
source : AR8

40) chain d
residue 114
type
sequence I
description binding site for residue PHO d 401
source : AR8

41) chain d
residue 118
type
sequence G
description binding site for residue PHO d 401
source : AR8

42) chain d
residue 121
type
sequence G
description binding site for residue PHO d 401
source : AR8

43) chain d
residue 122
type
sequence L
description binding site for residue PHO d 401
source : AR8

44) chain d
residue 125
type
sequence F
description binding site for residue PHO d 401
source : AR8

45) chain d
residue 129
type
sequence Q
description binding site for residue PHO d 401
source : AR8

46) chain d
residue 142
type
sequence N
description binding site for residue PHO d 401
source : AR8

47) chain d
residue 145
type
sequence A
description binding site for residue PHO d 401
source : AR8

48) chain d
residue 146
type
sequence F
description binding site for residue PHO d 401
source : AR8

49) chain d
residue 149
type
sequence P
description binding site for residue PHO d 401
source : AR8

50) chain d
residue 153
type
sequence F
description binding site for residue PHO d 401
source : AR8

51) chain d
residue 275
type
sequence P
description binding site for residue PHO d 401
source : AR8

52) chain d
residue 276
type
sequence V
description binding site for residue PHO d 401
source : AR8

53) chain d
residue 45
type
sequence L
description binding site for residue CLA d 402
source : AR9

54) chain d
residue 122
type
sequence L
description binding site for residue CLA d 402
source : AR9

55) chain d
residue 149
type
sequence P
description binding site for residue CLA d 402
source : AR9

56) chain d
residue 152
type
sequence V
description binding site for residue CLA d 402
source : AR9

57) chain d
residue 153
type
sequence F
description binding site for residue CLA d 402
source : AR9

58) chain d
residue 156
type
sequence V
description binding site for residue CLA d 402
source : AR9

59) chain d
residue 182
type
sequence L
description binding site for residue CLA d 402
source : AR9

60) chain d
residue 185
type
sequence F
description binding site for residue CLA d 402
source : AR9

61) chain d
residue 186
type
sequence Q
description binding site for residue CLA d 402
source : AR9

62) chain d
residue 191
type
sequence W
description binding site for residue CLA d 402
source : AR9

63) chain d
residue 197
type
sequence H
description binding site for residue CLA d 402
source : AR9

64) chain d
residue 200
type
sequence G
description binding site for residue CLA d 402
source : AR9

65) chain d
residue 282
type
sequence S
description binding site for residue CLA d 402
source : AR9

66) chain d
residue 286
type
sequence V
description binding site for residue CLA d 402
source : AR9

67) chain d
residue 40
type
sequence C
description binding site for residue CLA d 403
source : AS1

68) chain d
residue 43
type
sequence L
description binding site for residue CLA d 403
source : AS1

69) chain d
residue 89
type
sequence L
description binding site for residue CLA d 403
source : AS1

70) chain d
residue 90
type
sequence L
description binding site for residue CLA d 403
source : AS1

71) chain d
residue 91
type
sequence L
description binding site for residue CLA d 403
source : AS1

72) chain d
residue 92
type
sequence L
description binding site for residue CLA d 403
source : AS1

73) chain d
residue 93
type
sequence W
description binding site for residue CLA d 403
source : AS1

74) chain d
residue 112
type
sequence T
description binding site for residue CLA d 403
source : AS1

75) chain d
residue 113
type
sequence F
description binding site for residue CLA d 403
source : AS1

76) chain d
residue 117
type
sequence H
description binding site for residue CLA d 403
source : AS1

77) chain d
residue 198
type
sequence M
description binding site for residue PL9 d 404
source : AS2

78) chain d
residue 214
type
sequence H
description binding site for residue PL9 d 404
source : AS2

79) chain d
residue 217
type
sequence T
description binding site for residue PL9 d 404
source : AS2

80) chain d
residue 249
type
sequence A
description binding site for residue PL9 d 404
source : AS2

81) chain d
residue 253
type
sequence W
description binding site for residue PL9 d 404
source : AS2

82) chain d
residue 260
type
sequence A
description binding site for residue PL9 d 404
source : AS2

83) chain d
residue 261
type
sequence F
description binding site for residue PL9 d 404
source : AS2

84) chain d
residue 267
type
sequence L
description binding site for residue PL9 d 404
source : AS2

85) chain d
residue 273
type
sequence F
description binding site for residue PL9 d 404
source : AS2

86) chain d
residue 274
type
sequence V
description binding site for residue PL9 d 404
source : AS2

87) chain d
residue 278
type
sequence G
description binding site for residue PL9 d 404
source : AS2

88) chain d
residue 99
type
sequence G
description binding site for residue DGD d 405
source : AS3

89) chain d
residue 100
type
sequence D
description binding site for residue DGD d 405
source : AS3

90) chain d
residue 101
type
sequence F
description binding site for residue DGD d 405
source : AS3

91) chain d
residue 102
type
sequence T
description binding site for residue DGD d 405
source : AS3

92) chain d
residue 141
type
sequence Y
description binding site for residue LHG d 406
source : AS4

93) chain d
residue 266
type
sequence W
description binding site for residue LHG d 406
source : AS4

94) chain d
residue 269
type
sequence F
description binding site for residue LHG d 406
source : AS4

95) chain d
residue 272
type
sequence L
description binding site for residue LHG d 406
source : AS4

96) chain d
residue 277
type
sequence T
description binding site for residue LHG d 406
source : AS4

97) chain d
residue 256
type
sequence I
description binding site for residue LHG d 407
source : AS5

98) chain d
residue 257
type
sequence F
description binding site for residue LHG d 407
source : AS5

99) chain d
residue 259
type
sequence I
description binding site for residue LHG d 407
source : AS5

100) chain d
residue 260
type
sequence A
description binding site for residue LHG d 407
source : AS5

101) chain d
residue 262
type
sequence S
description binding site for residue LHG d 407
source : AS5

102) chain d
residue 263
type
sequence N
description binding site for residue LHG d 407
source : AS5

103) chain d
residue 266
type
sequence W
description binding site for residue LHG d 407
source : AS5

104) chain d
residue 270
type
sequence F
description binding site for residue LHG d 407
source : AS5

105) chain d
residue 27
type
sequence F
description binding site for residue LHG e 101
source : AS6

106) chain d
residue 37
type
sequence L
description binding site for residue LHG e 101
source : AS6

107) chain d
residue 42
type
sequence Y
description binding site for residue BCR f 101
source : AS8

108) chain d
residue 43
type
sequence L
description binding site for residue BCR f 101
source : AS8

109) chain d
residue 49
type
sequence L
description binding site for residue BCR f 101
source : AS8

110) chain d
residue 101
type
sequence F
description binding site for residue BCR f 101
source : AS8

111) chain d
residue 87
type
sequence H
description binding site for residue DGD h 102
source : AT2

112) chain d
residue 123
type
sequence I
description binding site for residue DGD h 102
source : AT2

113) chain d
residue 162
type
sequence L
description binding site for residue DGD h 102
source : AT2

114) chain d
residue 67
type
sequence Y
description binding site for residue LMG j 101
source : AT3

115) chain d
residue 70
type
sequence G
description binding site for residue LMG j 101
source : AT3

116) chain d
residue 71
type
sequence C
description binding site for residue LMG j 101
source : AT3

117) chain d
residue 72
type
sequence N
description binding site for residue LMG j 101
source : AT3

118) chain d
residue 73
type
sequence F
description binding site for residue LMG j 101
source : AT3

119) chain d
residue 266
type
sequence W
description binding site for residue LHG l 102
source : AT7

120) chain d
residue 273
type
sequence F
description binding site for residue LHG l 102
source : AT7

121) chain d
residue 21
type
sequence W
description binding site for residue SQD x 101
source : AU2

122) chain d
residue 24
type
sequence R
description binding site for residue SQD x 101
source : AU2

123) chain d
residue 26
type
sequence R
description binding site for residue SQD x 101
source : AU2

124) chain d
residue 266-288
type TOPO_DOM
sequence WLHFFMLFVPVTGLWMSAIGVVG
description Lumenal
source Swiss-Prot : SWS_FT_FI1

125) chain d
residue 32-53
type TOPO_DOM
sequence WSGILLFPCAYLALGGWLTGTT
description Lumenal
source Swiss-Prot : SWS_FT_FI1

126) chain d
residue 109-131
type TOPO_DOM
sequence GLWTFIALHGAFGLIGFMLRQFE
description Lumenal
source Swiss-Prot : SWS_FT_FI1

127) chain d
residue 141-160
type TOPO_DOM
sequence YNAIAFSAPIAVFVSVFLIY
description Lumenal
source Swiss-Prot : SWS_FT_FI1

128) chain d
residue 194-217
type TOPO_DOM
sequence NPFHMMGVAGVLGGALLCAIHGAT
description Lumenal
source Swiss-Prot : SWS_FT_FI1

129) chain d
residue 268
type BINDING
sequence H
description BINDING => ECO:0000255|HAMAP-Rule:MF_01383, ECO:0000269|PubMed:16355230, ECO:0000269|PubMed:19219048, ECO:0000303|PubMed:14764885, ECO:0000303|PubMed:20558739, ECO:0000303|PubMed:21367867, ECO:0000303|PubMed:22665786, ECO:0000303|PubMed:23413188, ECO:0000303|PubMed:25006873, ECO:0000303|PubMed:25043005, ECO:0000303|DOI:10.1039/B406989G
source Swiss-Prot : SWS_FT_FI10

130) chain d
residue 161-193
type TRANSMEM
sequence PLGQSSWFFAPSFGVAAIFRFLLFFQGFHNWTL
description Helical => ECO:0000269|PubMed:33846594, ECO:0007744|PDB:7NHQ
source Swiss-Prot : SWS_FT_FI2

131) chain d
residue 289-352
type TRANSMEM
sequence LALNLRSYDFISQEIRAAEDPEFETFYTKNLLLNEGIRAW
MAPQDQPHENFVFPEEVLPRGNAL
description Helical => ECO:0000269|PubMed:33846594, ECO:0007744|PDB:7NHQ
source Swiss-Prot : SWS_FT_FI2

132) chain d
residue 132-140
type TOPO_DOM
sequence IARLVGVRP
description Cytoplasmic => ECO:0000269|PubMed:33846594, ECO:0007744|PDB:7NHQ
source Swiss-Prot : SWS_FT_FI3

133) chain d
residue 218-265
type TOPO_DOM
sequence VENTLFQDGEGASTFRAFNPTQAEETYSMVTANRFWSQIF
GIAFSNKR
description Cytoplasmic => ECO:0000269|PubMed:33846594, ECO:0007744|PDB:7NHQ
source Swiss-Prot : SWS_FT_FI3

134) chain d
residue 142
type BINDING
sequence N
description BINDING => ECO:0000255|HAMAP-Rule:MF_01383, ECO:0000269|PubMed:16355230, ECO:0000269|PubMed:19219048, ECO:0000303|PubMed:20558739, ECO:0000303|PubMed:21367867, ECO:0000303|PubMed:25043005
source Swiss-Prot : SWS_FT_FI6

135) chain d
residue 197
type BINDING
sequence H
description axial binding residue => ECO:0000255|HAMAP-Rule:MF_01383, ECO:0000269|PubMed:16355230, ECO:0000269|PubMed:19219048, ECO:0000303|PubMed:14764885, ECO:0000303|PubMed:20558739, ECO:0000303|PubMed:21367867, ECO:0000303|PubMed:22665786, ECO:0000303|PubMed:23413188, ECO:0000303|PubMed:25043005, ECO:0000303|DOI:10.1039/B406989G
source Swiss-Prot : SWS_FT_FI7

136) chain d
residue 214
type BINDING
sequence H
description BINDING => ECO:0000255|HAMAP-Rule:MF_01383, ECO:0000269|PubMed:16355230, ECO:0000269|PubMed:19219048, ECO:0000303|PubMed:14764885, ECO:0000303|PubMed:20558739, ECO:0000303|PubMed:21367867, ECO:0000303|PubMed:22665786, ECO:0000303|PubMed:23413188, ECO:0000303|PubMed:25043005, ECO:0000303|DOI:10.1039/B406989G
source Swiss-Prot : SWS_FT_FI8

137) chain d
residue 261
type BINDING
sequence F
description BINDING => ECO:0000255|HAMAP-Rule:MF_01383, ECO:0000269|PubMed:16355230, ECO:0000269|PubMed:19219048, ECO:0000303|PubMed:14764885, ECO:0000303|PubMed:20558739, ECO:0000303|PubMed:21367867, ECO:0000303|PubMed:22665786, ECO:0000303|PubMed:23413188, ECO:0000303|PubMed:25006873, ECO:0000303|PubMed:25043005
source Swiss-Prot : SWS_FT_FI9


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